SAXSdb — 3e7d

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1. Protein Identity and Related Structures Protein Identity & Related Structures

CobH, precorrin-8X methylmutase

Brucella abortus

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein homooligomer	Homooligomer	Protein 2	water × 2	Consistent with protein count
2	Protein homooligomer	Homooligomer	Protein 2	water × 2	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	Q57CK9_BRUAB
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 5–212； UniProt 1–208 Author chain B； PDBConstruct 5–212； UniProt 1–208 Author chain C； PDBConstruct 5–212； UniProt 1–208 Author chain D； PDBConstruct 5–212； UniProt 1–208

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	3e7d
Deposition date deposition_date	2008-08-18
Structure title title	Crystal Structure of Precorrin-8X Methyl Mutase CbiC/CobH from Brucella melitensis
Keywords keywords	SSGCID, deCODE, BrabA00006a, Structural Genomics, Seattle Structural Genomics Center for Infectious Disease, ISOMERASE; ISOMERASE
Experimental Method method	X-RAY DIFFRACTION

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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

3e7d__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

3e7d__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

3e7d__assembly_1__model_1 | P(r) · Pending

P(r) will be calculated and displayed separately for the same assembly/model.

Rg（Guinier）	21.89 Å
Rg (electron density)	20.90 Å
Total Rg	21.60 Å
Atom count	2956
Residues	406
Excluded volume	52823 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`3e7d__assembly_1__model_1`	dimeric （2）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`3e7d__assembly_2__model_1`	dimeric （2）	Success	4.1.3-1-20251215 (887e7ef)	View Download

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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (2)

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6. Fold Classification (SCOP + CATH) 8 domains

SCOP 2.08 (4 domains)

Domain ID domain_id	d3e7da_
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.23 — Flavodoxin-like
Superfamily Superfamily superfamily	c.23.17 — Precorrin-8X methylmutase CbiC/CobH
Family Family family	c.23.17.1 — Precorrin-8X methylmutase CbiC/CobH

Domain ID domain_id	d3e7db_
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.23 — Flavodoxin-like
Superfamily Superfamily superfamily	c.23.17 — Precorrin-8X methylmutase CbiC/CobH
Family Family family	c.23.17.1 — Precorrin-8X methylmutase CbiC/CobH

Domain ID domain_id	d3e7dc_
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.23 — Flavodoxin-like
Superfamily Superfamily superfamily	c.23.17 — Precorrin-8X methylmutase CbiC/CobH
Family Family family	c.23.17.1 — Precorrin-8X methylmutase CbiC/CobH

Domain ID domain_id	d3e7dd_
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.23 — Flavodoxin-like
Superfamily Superfamily superfamily	c.23.17 — Precorrin-8X methylmutase CbiC/CobH
Family Family family	c.23.17.1 — Precorrin-8X methylmutase CbiC/CobH

CATH v4.4 (4 domains)

Domain ID domain_id	3e7dA00
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	10230 — Cobalamin biosynthesis CobH/CbiC, precorrin-8X methylmutase

Domain ID domain_id	3e7dB00
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	10230 — Cobalamin biosynthesis CobH/CbiC, precorrin-8X methylmutase

Domain ID domain_id	3e7dC00
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	10230 — Cobalamin biosynthesis CobH/CbiC, precorrin-8X methylmutase

Domain ID domain_id	3e7dD00
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	10230 — Cobalamin biosynthesis CobH/CbiC, precorrin-8X methylmutase

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Unit-cell length a length_a	57.724 Å
Unit-cell length b length_b	68.927 Å
Unit-cell length c length_c	103.196 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	95.88 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	8

Space group space_group	P 1 21 1
Space-group number int_tables_number	4
Crystal system crystal_system	—

Resolution resolution	1.800 Å
Low-resolution limit resolution_low	50.000 Å
R factor r_factor	0.2340
R_work r_work	0.2320
R_free r_free	0.2600

Description description	CobH, precorrin-8X methylmutase
Molecular weight formula_weight	22209.5 kDa
Source method src_method	man
Copy count entity_count	4

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C,D
Atom count atom_count	6557

Crystal Structure of Precorrin-8X Methyl Mutase CbiC/CobH from Brucella melitensis

1. Protein Identity and Related Structures Protein Identity & Related Structures

CobH, precorrin-8X methylmutase

State in the Current Structure

Other States of the Same Protein in the Database

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

3e7d__assembly_1__model_1

3e7d__assembly_1__model_1 | I(q)

3e7d__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (2)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 water

6. Fold Classification (SCOP + CATH) 8 domains

SCOP 2.08 (4 domains)

CATH v4.4 (4 domains)

7. Citations (1)

Source organism organism	Brucella abortus
NCBI taxonomy ID ncbi_taxonomy_id	235
Host organism host_organism	Escherichia coli

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	648

Crystal Structure of Precorrin-8X Methyl Mutase CbiC/CobH from Brucella melitensis

1. Protein Identity and Related Structures Protein Identity & Related Structures

CobH, precorrin-8X methylmutase

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

3e7d__assembly_1__model_1

3e7d__assembly_1__model_1 | I(q)

3e7d__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (2)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 water

6. Fold Classification (SCOP + CATH) 8 domains

SCOP 2.08 (4 domains)

CATH v4.4 (4 domains)

7. Citations (1)